Ipython kernel keeps crashing when running UMAP
I am trying to run some dimensionality reduction using UMAP. However, python keeps crashing. My hunch is that it has something to do with c compiler/cython, but I didn't succeed to re-install/fix this.
import pandas as pd
import umap
SIFdf = pd.read_csv("SIF2004and2005.csv") # large dataframe with sentence vectors
clusterable_embedding = umap.UMAP(
metric='cosine',
n_neighbors=5,
min_dist=0.0,
n_components=2, # 2 pro primou vizualizaci, protoze to chceme poslat dal tak bychom to meli nastavit tak na 50
random_state=42,
).fit_transform(SIFdf)
This is followed by many numba warnings, which shouldn't be critical (according to this https://github.com/lmcinnes/umap/issues/252)
When checking the crash report, I can't seem to figure out, what exactly is causing the trouble.
Process: Python [19906]
Path: /usr/local/Cellar/python/3.7.4/Frameworks/Python.framework/Versions/3.7/Resources/Python.app/Contents/MacOS/Python
Identifier: Python
Version: 3.7.4 (3.7.4)
Code Type: X86-64 (Native)
Parent Process: python3.6 [1328]
Responsible: Python [19906]
User ID: 501
Date/Time: 2019-07-18 14:54:26.528 +0200
OS Version: Mac OS X 10.13.6 (17G65)
Report Version: 12
Anonymous UUID: 60E722C2-5873-483E-7DC6-B76F77750C86
Sleep/Wake UUID: 7D8D6DEE-465E-4160-B665-753815757FE6
Time Awake Since Boot: 49000 seconds
Time Since Wake: 11000 seconds
System Integrity Protection: enabled
Crashed Thread: 0 ZMQbg/1 Dispatch queue: com.apple.main-thread
Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0xfffffffffffffffa
Exception Note: EXC_CORPSE_NOTIFY
Termination Signal: Segmentation fault: 11
Termination Reason: Namespace SIGNAL, Code 0xb
Terminating Process: exc handler [0]
VM Regions Near 0xfffffffffffffffa:
--> shared memory 00007ffffff7e000-00007ffffff7f000 [ 4K] r-x/r-x SM=SHM
Thread 0 Crashed:: ZMQbg/1 Dispatch queue: com.apple.main-thread
0 _dynfunc.cpython-37m-darwin.so 0x000000012d6c27cf closure_dealloc + 31
1 org.python.python 0x000000010d5fe4f3 meth_dealloc + 87
2 org.python.python 0x000000010d60bab3 tupledealloc + 94
3 org.python.python 0x000000010d60d72d subtype_dealloc + 892
4 org.python.python 0x000000010d5f43bf free_keys_object + 127
5 org.python.python 0x000000010d5f63d2 dict_dealloc + 187
6 org.python.python 0x000000010d5f8958 odict_dealloc + 124
7 org.python.python 0x000000010d5f43bf free_keys_object + 127
8 org.python.python 0x000000010d5f63d2 dict_dealloc + 187
9 org.python.python 0x000000010d60d7cd subtype_dealloc + 1052
10 org.python.python 0x000000010d5e53f7 frame_dealloc + 161
11 org.python.python 0x000000010d66a957 _PyEval_EvalCodeWithName + 1743
12 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
13 org.python.python 0x000000010d66a121 call_function + 753
14 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
15 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
16 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
17 org.python.python 0x000000010d66a121 call_function + 753
18 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
19 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
20 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
21 org.python.python 0x000000010d66a121 call_function + 753
22 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
23 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
24 org.python.python 0x000000010d66110d PyEval_EvalCode + 42
25 org.python.python 0x000000010d65eb8c builtin_exec + 554
26 org.python.python 0x000000010d5d4bc0 _PyMethodDef_RawFastCallKeywords + 496
27 org.python.python 0x000000010d5d413b _PyCFunction_FastCallKeywords + 44
28 org.python.python 0x000000010d66a0ac call_function + 636
29 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
30 org.python.python 0x000000010d5dfd5a gen_send_ex + 242
31 org.python.python 0x000000010d66574a _PyEval_EvalFrameDefault + 17845
32 org.python.python 0x000000010d5dfd5a gen_send_ex + 242
33 org.python.python 0x000000010d66574a _PyEval_EvalFrameDefault + 17845
34 org.python.python 0x000000010d5dfd5a gen_send_ex + 242
35 org.python.python 0x000000010d5d4c1f _PyMethodDef_RawFastCallKeywords + 591
36 org.python.python 0x000000010d5d9556 _PyMethodDescr_FastCallKeywords + 82
37 org.python.python 0x000000010d66a151 call_function + 801
38 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
39 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
40 org.python.python 0x000000010d66a121 call_function + 753
41 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
42 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
43 org.python.python 0x000000010d66a121 call_function + 753
44 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
45 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
46 org.python.python 0x000000010d5d3d69 _PyFunction_FastCallDict + 441
47 org.python.python 0x000000010d5d4ebd _PyObject_Call_Prepend + 150
48 org.python.python 0x000000010d5d4249 PyObject_Call + 136
49 org.python.python 0x000000010d663014 _PyEval_EvalFrameDefault + 7807
50 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
51 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
52 org.python.python 0x000000010d66a121 call_function + 753
53 org.python.python 0x000000010d662e41 _PyEval_EvalFrameDefault + 7340
54 org.python.python 0x000000010d5dfd5a gen_send_ex + 242
55 org.python.python 0x000000010d65f66d builtin_next + 99
56 org.python.python 0x000000010d5d4bc0 _PyMethodDef_RawFastCallKeywords + 496
57 org.python.python 0x000000010d5d413b _PyCFunction_FastCallKeywords + 44
58 org.python.python 0x000000010d66a0ac call_function + 636
59 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
60 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
61 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
62 org.python.python 0x000000010d66a121 call_function + 753
63 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
64 org.python.python 0x000000010d5dfd5a gen_send_ex + 242
65 org.python.python 0x000000010d65f66d builtin_next + 99
66 org.python.python 0x000000010d5d4bc0 _PyMethodDef_RawFastCallKeywords + 496
67 org.python.python 0x000000010d5d413b _PyCFunction_FastCallKeywords + 44
68 org.python.python 0x000000010d66a0ac call_function + 636
69 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
70 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
71 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
72 org.python.python 0x000000010d66a121 call_function + 753
73 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
74 org.python.python 0x000000010d5dfd5a gen_send_ex + 242
75 org.python.python 0x000000010d65f66d builtin_next + 99
76 org.python.python 0x000000010d5d4bc0 _PyMethodDef_RawFastCallKeywords + 496
77 org.python.python 0x000000010d5d413b _PyCFunction_FastCallKeywords + 44
78 org.python.python 0x000000010d66a0ac call_function + 636
79 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
80 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
81 org.python.python 0x000000010d5d3d69 _PyFunction_FastCallDict + 441
82 org.python.python 0x000000010d5d4ebd _PyObject_Call_Prepend + 150
83 org.python.python 0x000000010d5d4249 PyObject_Call + 136
84 org.python.python 0x000000010d663014 _PyEval_EvalFrameDefault + 7807
85 org.python.python 0x000000010d5dfd5a gen_send_ex + 242
86 org.python.python 0x000000010d5d4c1f _PyMethodDef_RawFastCallKeywords + 591
87 org.python.python 0x000000010d5d9556 _PyMethodDescr_FastCallKeywords + 82
88 org.python.python 0x000000010d66a151 call_function + 801
89 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
90 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
91 org.python.python 0x000000010d66a121 call_function + 753
92 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
93 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
94 org.python.python 0x000000010d5d3d69 _PyFunction_FastCallDict + 441
95 org.python.python 0x000000010d6c1640 partial_call + 378
96 org.python.python 0x000000010d5d3fa1 _PyObject_FastCallKeywords + 359
97 org.python.python 0x000000010d66a11a call_function + 746
98 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
99 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
100 org.python.python 0x000000010d66a121 call_function + 753
101 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
102 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
103 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
104 org.python.python 0x000000010d68c1aa context_run + 65
105 org.python.python 0x000000010d5d46e0 _PyMethodDef_RawFastCallDict + 273
106 org.python.python 0x000000010d5d3de9 _PyCFunction_FastCallDict + 44
107 org.python.python 0x000000010d6630f1 _PyEval_EvalFrameDefault + 8028
108 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
109 org.python.python 0x000000010d66a121 call_function + 753
110 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
111 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
112 org.python.python 0x000000010d66a121 call_function + 753
113 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
114 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
115 org.python.python 0x000000010d66a121 call_function + 753
116 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
117 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
118 org.python.python 0x000000010d66a121 call_function + 753
119 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
120 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
121 org.python.python 0x000000010d66a121 call_function + 753
122 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
123 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
124 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
125 org.python.python 0x000000010d66a121 call_function + 753
126 org.python.python 0x000000010d662cfd _PyEval_EvalFrameDefault + 7016
127 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
128 org.python.python 0x000000010d66110d PyEval_EvalCode + 42
129 org.python.python 0x000000010d65eb8c builtin_exec + 554
130 org.python.python 0x000000010d5d4bc0 _PyMethodDef_RawFastCallKeywords + 496
131 org.python.python 0x000000010d5d413b _PyCFunction_FastCallKeywords + 44
132 org.python.python 0x000000010d66a0ac call_function + 636
133 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
134 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
135 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
136 org.python.python 0x000000010d66a121 call_function + 753
137 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
138 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
139 org.python.python 0x000000010d5d3d69 _PyFunction_FastCallDict + 441
140 org.python.python 0x000000010d6a7c87 pymain_run_module + 147
141 org.python.python 0x000000010d6a64d5 pymain_main + 2055
142 org.python.python 0x000000010d6a78a7 _Py_UnixMain + 75
143 libdyld.dylib 0x00007fff6e9d2015 start + 1
Thread 1:
0 libsystem_kernel.dylib 0x00007fff6eb23bea kevent + 10
1 libzmq.cpython-37m-darwin.so 0x000000011067c5ab zmq::kqueue_t::loop() + 171
2 libzmq.cpython-37m-darwin.so 0x0000000110671fde thread_routine(void*) + 46
3 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
4 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
5 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 2:
0 libsystem_kernel.dylib 0x00007fff6eb23bea kevent + 10
1 libzmq.cpython-37m-darwin.so 0x000000011067c5ab zmq::kqueue_t::loop() + 171
2 libzmq.cpython-37m-darwin.so 0x0000000110671fde thread_routine(void*) + 46
3 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
4 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
5 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 3:
0 libsystem_kernel.dylib 0x00007fff6eb23bea kevent + 10
1 select.cpython-37m-darwin.so 0x000000010e392345 kqueue_queue_control + 826
2 org.python.python 0x000000010d5d4abc _PyMethodDef_RawFastCallKeywords + 236
3 org.python.python 0x000000010d5d9556 _PyMethodDescr_FastCallKeywords + 82
4 org.python.python 0x000000010d66a151 call_function + 801
5 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
6 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
7 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
8 org.python.python 0x000000010d66a121 call_function + 753
9 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
10 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
11 org.python.python 0x000000010d66a121 call_function + 753
12 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
13 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
14 org.python.python 0x000000010d66a121 call_function + 753
15 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
16 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
17 org.python.python 0x000000010d66a121 call_function + 753
18 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
19 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
20 org.python.python 0x000000010d5d4ebd _PyObject_Call_Prepend + 150
21 org.python.python 0x000000010d5d4249 PyObject_Call + 136
22 org.python.python 0x000000010d663014 _PyEval_EvalFrameDefault + 7807
23 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
24 org.python.python 0x000000010d66a121 call_function + 753
25 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
26 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
27 org.python.python 0x000000010d66a121 call_function + 753
28 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
29 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
30 org.python.python 0x000000010d5d4ebd _PyObject_Call_Prepend + 150
31 org.python.python 0x000000010d5d4249 PyObject_Call + 136
32 org.python.python 0x000000010d6d1d80 t_bootstrap + 71
33 org.python.python 0x000000010d69859d pythread_wrapper + 25
34 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
35 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
36 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 4:: ZMQbg/3
0 libsystem_kernel.dylib 0x00007fff6eb2409a poll + 10
1 libzmq.cpython-37m-darwin.so 0x000000011069cc96 zmq_poll + 422
2 libzmq.cpython-37m-darwin.so 0x000000011069f7ec zmq::proxy(zmq::socket_base_t*, zmq::socket_base_t*, zmq::socket_base_t*, zmq::socket_base_t*) + 284
3 _device.cpython-37m-darwin.so 0x000000011037a2aa __pyx_pw_3zmq_7backend_6cython_7_device_3proxy + 394
4 _device.cpython-37m-darwin.so 0x0000000110379c95 __Pyx_PyObject_Call + 85
5 _device.cpython-37m-darwin.so 0x0000000110378c11 __pyx_pw_3zmq_7backend_6cython_7_device_1device + 529
6 org.python.python 0x000000010d5d3fa1 _PyObject_FastCallKeywords + 359
7 org.python.python 0x000000010d66a11a call_function + 746
8 org.python.python 0x000000010d662cfd _PyEval_EvalFrameDefault + 7016
9 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
10 org.python.python 0x000000010d66a121 call_function + 753
11 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
12 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
13 org.python.python 0x000000010d66a121 call_function + 753
14 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
15 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
16 org.python.python 0x000000010d5d4ebd _PyObject_Call_Prepend + 150
17 org.python.python 0x000000010d5d4249 PyObject_Call + 136
18 org.python.python 0x000000010d6d1d80 t_bootstrap + 71
19 org.python.python 0x000000010d69859d pythread_wrapper + 25
20 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
21 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
22 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 5:
0 libsystem_kernel.dylib 0x00007fff6eb23bea kevent + 10
1 libzmq.cpython-37m-darwin.so 0x000000011067c5ab zmq::kqueue_t::loop() + 171
2 libzmq.cpython-37m-darwin.so 0x0000000110671fde thread_routine(void*) + 46
3 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
4 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
5 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 6:
0 libsystem_kernel.dylib 0x00007fff6eb23bea kevent + 10
1 libzmq.cpython-37m-darwin.so 0x000000011067c5ab zmq::kqueue_t::loop() + 171
2 libzmq.cpython-37m-darwin.so 0x0000000110671fde thread_routine(void*) + 46
3 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
4 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
5 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 7:
0 libsystem_kernel.dylib 0x00007fff6eb22a16 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6eceb589 _pthread_cond_wait + 732
2 org.python.python 0x000000010d698914 PyThread_acquire_lock_timed + 401
3 org.python.python 0x000000010d6d164a acquire_timed + 104
4 org.python.python 0x000000010d6d140e lock_PyThread_acquire_lock + 44
5 org.python.python 0x000000010d5d4bf1 _PyMethodDef_RawFastCallKeywords + 545
6 org.python.python 0x000000010d5d9556 _PyMethodDescr_FastCallKeywords + 82
7 org.python.python 0x000000010d66a151 call_function + 801
8 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
9 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
10 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
11 org.python.python 0x000000010d66a121 call_function + 753
12 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
13 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
14 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
15 org.python.python 0x000000010d66a121 call_function + 753
16 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
17 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
18 org.python.python 0x000000010d663014 _PyEval_EvalFrameDefault + 7807
19 org.python.python 0x000000010d66a9b6 _PyEval_EvalCodeWithName + 1838
20 org.python.python 0x000000010d5d4100 _PyFunction_FastCallKeywords + 225
21 org.python.python 0x000000010d66a121 call_function + 753
22 org.python.python 0x000000010d662d9b _PyEval_EvalFrameDefault + 7174
23 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
24 org.python.python 0x000000010d66a121 call_function + 753
25 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
26 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
27 org.python.python 0x000000010d66a121 call_function + 753
28 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
29 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
30 org.python.python 0x000000010d5d4ebd _PyObject_Call_Prepend + 150
31 org.python.python 0x000000010d5d4249 PyObject_Call + 136
32 org.python.python 0x000000010d6d1d80 t_bootstrap + 71
33 org.python.python 0x000000010d69859d pythread_wrapper + 25
34 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
35 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
36 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 8:
0 libsystem_kernel.dylib 0x00007fff6eb22cf2 __select + 10
1 org.python.python 0x000000010d6cfaf8 time_sleep + 121
2 org.python.python 0x000000010d5d4c1f _PyMethodDef_RawFastCallKeywords + 591
3 org.python.python 0x000000010d5d413b _PyCFunction_FastCallKeywords + 44
4 org.python.python 0x000000010d66a0ac call_function + 636
5 org.python.python 0x000000010d662cfd _PyEval_EvalFrameDefault + 7016
6 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
7 org.python.python 0x000000010d66a121 call_function + 753
8 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
9 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
10 org.python.python 0x000000010d66a121 call_function + 753
11 org.python.python 0x000000010d662ce4 _PyEval_EvalFrameDefault + 6991
12 org.python.python 0x000000010d5d4516 function_code_fastcall + 112
13 org.python.python 0x000000010d5d4ebd _PyObject_Call_Prepend + 150
14 org.python.python 0x000000010d5d4249 PyObject_Call + 136
15 org.python.python 0x000000010d6d1d80 t_bootstrap + 71
16 org.python.python 0x000000010d69859d pythread_wrapper + 25
17 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
18 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
19 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 9:
0 libsystem_kernel.dylib 0x00007fff6eb22a16 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6eceb589 _pthread_cond_wait + 732
2 libopenblasp-r0.3.7.dev.dylib 0x000000011d16fc0b blas_thread_server + 619
3 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
4 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
5 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 10:
0 libsystem_kernel.dylib 0x00007fff6eb22a16 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6eceb589 _pthread_cond_wait + 732
2 libopenblasp-r0.3.7.dev.dylib 0x000000011d16fc0b blas_thread_server + 619
3 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
4 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
5 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 11:
0 libsystem_kernel.dylib 0x00007fff6eb22a16 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6eceb589 _pthread_cond_wait + 732
2 libopenblasp-r0.3.7.dev.dylib 0x000000011d16fc0b blas_thread_server + 619
3 libsystem_pthread.dylib 0x00007fff6ecea661 _pthread_body + 340
4 libsystem_pthread.dylib 0x00007fff6ecea50d _pthread_start + 377
5 libsystem_pthread.dylib 0x00007fff6ece9bf9 thread_start + 13
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x000000010f830c30 rbx: 0x000000012eb03bb0 rcx: 0xfffffffffffffffa rdx: 0x0000000131085470
rdi: 0x000000012eb03bb0 rsi: 0x0000000131085bb0 rbp: 0x00007ffee2643c50 rsp: 0x00007ffee2643c40
r8: 0x0000000000000000 r9: 0x0000000000008004 r10: 0x0000000000000000 r11: 0x0000000000003441
r12: 0x00000001313c4940 r13: 0x000000010d60ba55 r14: 0x00007fc26340a230 r15: 0x000000000000000e
rip: 0x000000012d6c27cf rfl: 0x0000000000010282 cr2: 0xfffffffffffffffa
Logical CPU: 0
Error Code: 0x00000006
Trap Number: 14
asked on Super User Jul 18, 2019 by 
Jan Pesl
Jan Pesl1 Answer
I had this issue and solved it by upgrading my version of numba to the latest 0.45.1.
answered on Super User Oct 3, 2019 by 
Alexander Reeves
Alexander ReevesUser contributions licensed under CC BY-SA 3.0